GNB4
protein-codingG protein subunit beta 4, the group of G protein subunits beta|WD repeat domain containing
Gene summary
Heterotrimeric guanine nucleotide-binding proteins (G proteins), which integrate signals between receptors and effector proteins, are composed of an alpha, a beta, and a gamma subunit. These subunits are encoded by families of related genes. This gene encodes a beta subunit. Beta subunits are important regulators of alpha subunits, as well as of certain signal transduction receptors and effectors. [provided by RefSeq, Jul 2008]
MANE transcript
Inheritance
ClinVar variants
Top phenotype
gnomAD constraint
Max pathogenic AF
Genomic locus
External References & Databases
Transcript & Mutation Effects
hg38 • Region Span ~55.4 kbGenCC Phenotypes & Disease Associations
Curated gene-disease validity assertions and inheritance patterns
Inheritance Pattern: AD
Disease ID:MONDO:0015626
Submitter: ClinGen
GNB4 was first reported in relation to autosomal dominant Charcot-Marie-Tooth Disease in 2013 (Soong et al., PMID: 23434417). Reported cases to date have an adolescent onset and are further characterized by slowly progressive distal muscle atrophy and weakness, distal sensory impairment with decreased reflexes, and variable nerve conduction velocities ranging from the demyelinating to the axonal range. Four missense variants, two of which are de novo, have been reported in humans. Evidence supporting this gene-disease relationship includes case-level data, segregation data, and experimental data. Variants in this gene have been reported in at least four probands in three separate publications (PMIDs: 23134117, 28642160, 27908631). Variants in this gene segregated with disease in five additional family members in one large family. Although the initial characterization evidence to support pathogenicity, there is a lack of appropriate supporting evidence for the latter two cases. This gene-disease relationship is additionally supported by expression data and functional alteration of human oligodendrocyte progenitor cells (hOPCs). Investigation determined that GNB4 is largely expressed in axons and Schwann cells of neurons, relating to the neurodegenerative phenotypes characteristic of CMT. Additionally, mice with an immunodeficient, demyelinating phenotype were injected with hOPCs both expressing and not expressing GNB4 and found a large increase in the latter's differentiation compared to the controls, suggesting a major role in myelin development and differentiation. Although there is additional evidence available, the lack of the exact mechanism and an animal model limits the scorable data. In summary, there is MODERATE evidence to support this gene-disease relationship. While more evidence is needed to establish this relationship definitively, no convincing contradictory evidence has emerged. This classification was approved by the ClinGen Charcot-Marie-Tooth Expert Panel on 02/25/20 (SOP Version 007). **Recuration update**: Four additional unrelated families from two publications were curated, providing new genetic evidence supporting the association between GNB4 and autosomal dominant Charcot-Marie-Tooth disease. Kwon et al. (2021; PMID: 34071515) reported three unrelated Korean families carrying heterozygous GNB4 variants. One family harbored the novel c.229G>A (p.Gly77Arg) variant, which occurred de novo in a patient with intermediate CMT and was absent from both unaffected parents. Although no variant-specific functional studies were performed, the phenotype was highly consistent with GNB4-associated neuropathy, and the variant affected a highly conserved residue within the WD40 repeat domain. This proband was scored as 1.0 point. Two additional unrelated families carried the recurrent c.265A>G (p.Lys89Glu) variant, each arising independently as a de novo event. This variant had previously been established as pathogenic and was supported by published functional studies demonstrating impaired GPCR signaling. Given the independent de novo occurrences of a recurrent pathogenic variant and the highly specific neuropathy phenotype, each family was scored as 1.5 points, contributing a total of 4.0 genetic evidence points. Pretkalnina et al. (2025; PMID: 41164122) described an additional unrelated autosomal dominant family carrying the novel c.239T>C (p.Ile80Thr) variant. The variant segregated with disease in multiple affected family members and was supported by extensive variant-specific functional studies demonstrating reduced Gβ4 protein expression, abnormal intracellular localization, and impaired GPCR signaling with significantly reduced IP₁ production. Based on the segregation data, highly consistent phenotype, and strong functional evidence, this family was scored as 1.0 point. Together, these publications contributed five additional genetic evidence points, increasing the total genetic evidence score further strengthening the association between GNB4 and autosomal dominant CMT. The total evidence reached 10.6 points which is still equivalent to Moderate classification, although the evidence remains just below the threshold for a definitive classification
Inheritance Pattern: AD
Disease ID:MONDO:0014074
Submitter: PanelApp Australia
Inheritance Pattern: AD
Disease ID:MONDO:0014074
Submitter: Orphanet
Inheritance Pattern: AD
Disease ID:MONDO:0014074
Submitter: Labcorp Genetics (formerly Invitae)
Clinical Genomic Database (CGD)
Manifestation: Neurologic
Intervention: General
Rationale: Genetic knowledge may be beneficial related to issues such as selection of optimal supportive care, informed medical decision-making, prognostic considerations, and avoidance of unnecessary testing
ClinVar Associated Diseases & Phenotypes
Reported disease conditions connected to GNB4 variants in ClinVar
ClinVar Variants & Pathogenicity by Type
Statistics based on transcript NM_021629.4. Only rare variants are included.
We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.
Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.
| Effect | PathogenicP | Likely pathogenicLP | VUS | Likely benignLB | BenignB | Sum |
|---|---|---|---|---|---|---|
| synonymous | 6 | 63 | 69 | |||
| missense | 2 | 4 | 112 | 17 | 135 | |
| nonsense | 7 | 7 | ||||
| start loss | 0 | |||||
| frameshift | 6 | 6 | ||||
| splice donor/acceptor (+/-2bp) | 7 | 7 | ||||
| Total | 2 | 4 | 138 | 80 | 0 | 224 |
Highest pathogenic variant AF is 0.000004956218
Transcript Catalog
Annotated transcript isoforms across RefSeq and Ensembl databases
| Transcript ID | Source | Protein ID | Coding Exons | MANE Status |
|---|---|---|---|---|
| RefSeq | NP_067642.1 | 9 | MANE Select | |
| Ensembl | ENSP00000232564.3 | 9 | MANE Select | |
| Ensembl | ENSP00000502010.1 | 8 | Standard | |
| Ensembl | ENSP00000420066.2 | 8 | Standard |
Gene Ontology (GO) Annotations & Pathways
Biological processes, molecular functions, cellular components and pathways
Pathways ConsensusPathDB
- PI3K-Akt signaling pathway - Homo sapiens (human)
- Relaxin signaling pathway - Homo sapiens (human)
- Kaposi,s sarcoma-associated herpesvirus infection - Homo sapiens (human)
- Retrograde endocannabinoid signaling - Homo sapiens (human)
- GABAergic synapse - Homo sapiens (human)
Biological Process
- protein folding
- signal transduction
- substantia nigra development
Molecular Function
- protein-containing complex binding
Cellular Component
- lysosomal membrane
- cytosol
- myelin sheath
- extracellular exosome
gnomAD Constraint
Source:
- Gene type
- protein_coding
- Transcript type
- protein_coding
- Transcript
- ENST00000232564
- Coding exons
- 9
- Length
- 52389
- Individuals with no LoFs
- 125732
- Homozygous LoFs
- 0
- Heterozygous LoFs
- 16
- Defined
- 125748
- p
- 0.0000636
| Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible | |
|---|---|---|---|---|---|---|
| Missense | 2.11 | 112 | 195 | 0.575 | 0.0000106 | 2228 |
| Missense (PolyPhen) | 27 | 67.463 | 0.40022 | 788 | ||
| Synonymous | 0.696 | 60 | 67.3 | 0.892 | 0.00000357 | 645 |
| Loss of Function | 2.58 | 8 | 20.7 | 0.387 | 0.00000118 | 221 |
Population LoF Frequency
| Population | CAF | p-value | Status |
|---|---|---|---|
| African | 0.000062 | 0.000062 | rare |
| Latino/Admixed American | 0.000029 | 0.000029 | rare |
| Ashkenazi Jewish | 0 | 0.0 | absent |
| East Asian | 0.000056 | 0.000054 | rare |
| Finnish | 0 | 0.0 | absent |
| European (Non-Finnish) | 0.000079 | 0.000079 | rare |
| South Asian | 0.00010 | 0.000098 | rare |
| Other | 0.00016 | 0.00016 | rare |
dbNSFP Gene Annotations
Source:
- Function
- FUNCTION: Guanine nucleotide-binding proteins (G proteins) are involved as a modulator or transducer in various transmembrane signaling systems. The beta and gamma chains are required for the GTPase activity, for replacement of GDP by GTP, and for G protein- effector interaction.;
Recessive Scores
- pRec
- 0.130
Intolerance Scores
- LoFtool
- 0.614
- RVIS EVS
- -0.03
- RVIS percentile EVS
- 51.4
Essentials
- Essential (CRISPR)
- N
- Essential (CRISPR2)
- N
- Essential (gene trap)
- N
- Indispensability pred.
- E
- Indispensability score
- 0.915
Gene Damage Prediction
| All | Recessive | Dominant | |
|---|---|---|---|
| Mendelian | Medium | Medium | Medium |
| Primary Immunodeficiency | Medium | Medium | Medium |
| Cancer | Medium | Medium | Medium |